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unitsaq.bsky.social @unitsaq.bsky.social · 27/08/2026

Tryptophan fluorescence >> BCA for total protein quant. doi.org/10.1021/ac50... No incubation time, SDS and reductant compatible, comparable sensitivity, protein AND peptides, cheap reagents. The only issue is variable tryptophan content which doesn't matter much for #proteomics normalization.

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unitsaq.bsky.social @unitsaq.bsky.social · 04/03/2026

Want better DIA #proteomics coverage at the same scan rate with almost zero effort? Get the variable and/or RT-segmented window mz's by uploading your precursor rt-mz table to this free & easy webapp! unitsaq.shinyapps.io/diavariablew... Idea to webapp in 2 days with #ClaudeCode!

unitsaq.shinyapps.io

DIA Window Optimizer

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unitsaq.bsky.social @unitsaq.bsky.social · 09/12/2025

Has anyone tried 10 mM AmAc:AmFo (~7:3 molar) as the additive for #LC-MS #lipidomics? Based on Cajka et al, seems like it would be a good compromise for fatty acids vs hydroxysterols to enable consistent RTs between polarities and fast polarity switching doi.org/10.3390/ijms...

doi.org

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unitsaq.bsky.social @unitsaq.bsky.social · 18/09/2025

I sometimes use Waters PrepMass column calculator for backpressures, volumes, flows, loads, and translating between column dimensions but it doesn't scale down to nanoflow. So I cloned and modified with LLM in a few shots: unitsaq.shinyapps.io/columncalcul... Original: www.waters.com/webassets/ot...

unitsaq.shinyapps.io

PrepMass Column Comparator (Scaled to μL/min and μg)

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unitsaq.bsky.social @unitsaq.bsky.social · 06/08/2025

#TeamMassSpec Bench Tip: get a 5-kg scale with subgram accuracy for making >200 mL solutions. Faster and more accurate than a graduated cylinder. 1) Measure out solute mass 2) Calculate mass of solvent wrt solution and solvent density (in a reusable spreadsheet) 3) Add solvent mass, done!

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unitsaq.bsky.social @unitsaq.bsky.social · 28/07/2025

Distilled rule of thumb for optimal Protein:Trypsin ratio vs Total Protein concentration in bottom-up #proteomics: Optimal protein:trypsin ≈ 0.1 * protein concentration (ng/uL) Aligns well with standard guidelines e.g. 50:1 at ~500 ng/uL Data from Table 5 in www.sciencedirect.com/science/arti...

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unitsaq.bsky.social @unitsaq.bsky.social · 24/07/2025

Distilled rule of thumb for optimal Cosine cutoffs at various n matching MS2 fragments in #metabolomics ID: Cosine > 0.90 - 0.05*MMP Aligns well with ~80% at 3 matched fragments I learned before. From Fig4a here www.nature.com/articles/s41...

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